Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95544	0.699
27DAP/17DAP	1.01902	1
39DAP/27DAP	1.09778	0.759
41DAP/39DAP	1.02905	0.904
42DAP/41DAP	1.27727	0.792
43DAP/42DAP	0.99807	0.937
47DAP/43DAP	0.98594	0.934
52DAP/47DAP	1.05078	0.913
57DAP/52DAP	1.05717	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.971	0.371
17DAP/reference	0.90658	0.158
27DAP/reference	0.95128	0.314
39DAP/reference	1.02388	0.842
41DAP/reference	0.97749	0.667
42DAP/reference	1.12438	0.003
43DAP/reference	1.16372	0.011
47DAP/reference	1.15021	0.003
52DAP/reference	1.04326	0.498
57DAP/reference	1.09892	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98368	0.716
27DAP/17DAP	1.02068	0.945
39DAP/27DAP	0.98791	0.932
41DAP/39DAP	0.93769	0.804
42DAP/41DAP	1.09439	0.487
43DAP/42DAP	0.9985	1
47DAP/43DAP	1.00035	1
52DAP/47DAP	0.97532	0.902
57DAP/52DAP	0.97399	0.68
57DAP/7DAP	0.95212	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10242	0.268
17DAP/reference	0.98884	0.518
27DAP/reference	1.10149	0.012
39DAP/reference	1.03562	0.436
41DAP/reference	1.07483	0.165
42DAP/reference	1.19062	0.014
43DAP/reference	1.16929	0.016
47DAP/reference	1.2847	0.063
52DAP/reference	1.04621	0.171
57DAP/reference	1.00291	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98206	0.72
17DAP/reference	1.0109	0.723
27DAP/reference	1.05002	0.562
39DAP/reference	0.93179	0.026
41DAP/reference	1.18331	0.269
42DAP/reference	1.04209	0.649
43DAP/reference	0.94826	0.352
47DAP/reference	1.01623	0.639
52DAP/reference	0.93777	0.023
57DAP/reference	0.89248	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02079	0.723
17DAP/reference	0.94737	0.118
27DAP/reference	0.95894	0.119
39DAP/reference	0.98837	0.643
41DAP/reference	0.97675	0.293
42DAP/reference	1.33354	0.016
43DAP/reference	1.17939	0.043
47DAP/reference	1.38094	0.02
52DAP/reference	1.19355	0.155
57DAP/reference	1.12816	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97488	1
26DAP/20DAP	1.20063	0.347
34DAP/26DAP	0.96779	0.898
51DAP/34DAP	1.02957	0.719
52DAP/51DAP	0.98986	1
53DAP/52DAP	1.14581	0.552
55DAP/53DAP	0.98197	0.876
57DAP/55DAP	0.94694	0.819
62DAP/57DAP	0.89061	0.871
68DAP/62DAP	1.30661	0.206
68DAP/14DAP	1.26003	0.125

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34068	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6966	0.184
Mature Green Tomato/Ripe Tomato	0.73725	0.045
Immature Eggplant/Mature Eggplant	1.17771	0.15
Ripe Pepper/Ripe Tomato	0.45076	0.293
Mature Eggplant/Ripe Tomato	0.55273	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8697	0.934
1-1-2/M82	0.99229	1
12-2/M82	0.79594	0.955
12-4/M82	1.07826	1
1-3/M82	1.10871	1
2-1-1/M82	0.83578	0.683
2-1/M82	0.92281	1
2-6/M82	0.87451	1
3-2/M82	1.01994	0.717
4-1-1/M82	0.94376	1
4-1/M82	1.20857	1
4-3-2/M82	1.02202	1
4-3/M82	0.91203	1
5-3/M82	0.97911	1
6-2/M82	0.98378	1
6-3/M82	1.02464	1
7-1/M82	1.01805	1
7-2/M82	0.94057	0.881
9-3-2/M82	1.08809	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1398	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11146	0.362
IL12-4/WTpooled	1.10313	0.367
IL1-4/WTpooled	0.89496
WT/WTpooled	0.97541	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.12439	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06713	0.921
DC3000/delta hrp 6h	1.18588	1
DC3000/delta hrp 12h	0.93425	1
DC3000/delta hrp 24h	1.01678	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01011	0.598
DC3000 delta B/DC3000 delta AB	0.98251	0.916

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79808	1
Exp 36h	1.17425	1
Exp 60h	1.14081	0.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.0106	1
Var 0h	0.6006	1
Var 12h I row2-row1	1.21105	0.473
Var 12h NI row2-row1	1.0605	0.281
Var 36h I row2-row1	0.93917	1
Var 36h NI row2-row1	1.04266	1
Var 60h I row2-row1	0.96383	0.285
Var 60h NI row2-row1	1.02648	0.904
Time course 0hI-0hNI	0.9901	1
Time course 12hI-12hNI	1.02398	0.786
Time course 36hI-36hNI	1.08402	0.128
Time course 60hI-60hNI	1.19513	0.137

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.07068	0.863
transgenic ySAMdc/azygous control (breaker)	1.13747	0.172
transgenic ySAMdc/azygous control (red)	1.02416	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98183	0.092

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93009	0.431

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01539	1
Manapal/WT (break)	1.07913	0.381
Manapal/WT (red)	0.79226	0.188